3D shape extraction segmentation and representation of soil microstructures using generalized cylinders

Ngom, Ndeye Fatou; Monga, Olivier; Mohamed, Mohamed Mahmoud Ould; Garnier, Patricia

doi:10.1016/j.cageo.2011.06.010

Cited by 21 publications

(13 citation statements)

References 22 publications

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“…Curves are very close except for pressures near zero where the model overestimated the water content compared to experimental data. In Ngom et al (2012), we showed that for large pores our model calculated large spheres whose radius is close to the real radius of pores as well as smaller spheres located between the pore wall and the large sphere. According to Young-Laplace law, these smaller spheres remain water-saturated although the equivalent pores, where they are located, should be full of air.…”

Section: Statisticsmentioning

confidence: 99%

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Simulating microbial degradation of organic matter in a simple porous system using the 3-D diffusion-based model MOSAIC

et al. 2014

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Abstract. This paper deals with the simulation of microbial degradation of organic matter in soil within the pore space at a microscopic scale. Pore space was analysed with microcomputed tomography and described using a sphere network coming from a geometrical modelling algorithm. The biological model was improved regarding previous work in order to include the transformation of dissolved organic compounds and diffusion processes. We tested our model using experimental results of a simple substrate decomposition experiment (fructose) within a simple medium (sand) in the presence of different bacterial strains. Separate incubations were carried out in microcosms using five different bacterial communities at two different water potentials of −10 and −100 cm of water. We calibrated the biological parameters by means of experimental data obtained at high water content, and we tested the model without changing any parameters at low water content. Same as for the experimental data, our simulation results showed that the decrease in water content caused a decrease of mineralization rate. The model was able to simulate the decrease of connectivity between substrate and microorganism due the decrease of water content.

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Section: Statisticsmentioning

confidence: 99%

“…As described in Monga et al (2007) and Ngom et al (2012), we approximated the geometry of the pore space by a network of volume primitives. To do so, we used a geometrical algorithm based on Delaunay triangulation to calculate the set of maximal spheres that describe the pore space geometry.…”

Section: Mosaic II Modelmentioning

confidence: 99%

Simulating microbial degradation of organic matter in a simple porous system using the 3-D diffusion-based model MOSAIC

et al. 2014

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“…In this approach, we approximate the pore space in the soil by a network of so-called volume primitives [33,36], i.e., simple geometric shapes that can be transformed at will and combined to represent more complex geometries. To do so, we use a geometrical algorithm based on Delaunay triangulation to determine the maximal balls of the pore space segmented from the 3D CT images.…”

Section: Mosaic Modelmentioning

confidence: 99%

Three-dimensional distribution of water and air in soil pores: Comparison of two-phase two-relaxation-times lattice-Boltzmann and morphological model outputs with synchrotron X-ray computed tomography data

Pot

Peth

Monga

et al. 2015

Advances in Water Resources

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“…Our aim is to simulate microbial decomposition in a nonregular 3D geometric volume shape defined by pore space. In this case pore space is described by a set of volume primitives [14,[20][21][22]. Therefore, we take as input the following data:  Geometrical representation of pore space using a network (attributed relational valuated graph) volume primitives [14,[20][21][22].…”

Section: Biological Modelmentioning

confidence: 99%

Modeling Microbial Decomposition in Real 3D Soil Structures Using Partial Differential Equations

Nguyen-Ngoc¹,

Lèye²,

Monga³

et al. 2013

IJG

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Partial Differential Equations (PDEs) have been already widely used to simulate various complex phenomena in porous media. This paper is one of the first attempts to apply PDEs for simulating in real 3D structures. We apply this scheme to the specific case study of the microbial decomposition of organic matter in soil pore space. We got a 3D geometrical representation of the pore space relating to a network of volume primitives. A mesh of the pore space is then created by using the network. PDEs system is solved by free finite elements solver Freefem3d in the particular mesh. We validate our PDEs model to experimental data with 3D Computed Tomography (CT) images of soil samples. Regarding the current state of art on soil organic matter decay models, our approach allows taking into account precise 3D spatialization of the decomposition process by a pore space geometry description.

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3D shape extraction segmentation and representation of soil microstructures using generalized cylinders

Cited by 21 publications

References 22 publications

Simulating microbial degradation of organic matter in a simple porous system using the 3-D diffusion-based model MOSAIC

Simulating microbial degradation of organic matter in a simple porous system using the 3-D diffusion-based model MOSAIC

Three-dimensional distribution of water and air in soil pores: Comparison of two-phase two-relaxation-times lattice-Boltzmann and morphological model outputs with synchrotron X-ray computed tomography data

Modeling Microbial Decomposition in Real 3D Soil Structures Using Partial Differential Equations

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